data_1F42 # _model_server_result.job_id X1FQH8LVywg7ta3VySGqLw _model_server_result.datetime_utc '2024-11-23 13:36:50' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1f42 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":505}' # _entry.id 1F42 # _exptl.entry_id 1F42 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 199.184 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '5-MERCAPTO-2-NITRO-BENZOIC ACID' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1F42 _cell.length_a 34 _cell.length_b 55 _cell.length_c 189.2 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1F42 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 D N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 MAN NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 B 1 NAG A 501 NAG 2 n B NAG 2 B 2 NAG A 502 NAG 2 n B MAN 3 B 3 MAN A 503 MAN # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 28 A CYS 28 1_555 A SG CYS 68 A CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 109 A CYS 109 1_555 A SG CYS 120 A CYS 120 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf3 A SG CYS 148 A CYS 148 1_555 A SG CYS 171 A CYS 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 A SG CYS 278 A CYS 278 1_555 A SG CYS 305 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? covale ? covale1 A SG CYS 177 A CYS 177 1_555 C S5 MNB . A MNB 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? covale ? covale2 A ND2 ASN 200 A ASN 200 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 A SG CYS 252 A CYS 252 1_555 D S5 MNB . A MNB 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale4 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.376 ? covale ? covale5 B O4 NAG . B NAG 2 1_555 B C1 MAN . B MAN 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.387 ? # _chem_comp.formula 'C7 H5 N O4 S' _chem_comp.formula_weight 199.184 _chem_comp.id MNB _chem_comp.mon_nstd_flag . _chem_comp.name '5-MERCAPTO-2-NITRO-BENZOIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C6 C1 MNB doub 261 n y C6 C5 MNB sing 262 n y C6 HC6 MNB sing 263 n n C1 C2 MNB sing 264 n y C1 C10 MNB sing 265 n n C2 C3 MNB doub 266 n y C2 N7 MNB sing 267 n n C3 C4 MNB sing 268 n y C3 HC3 MNB sing 269 n n C4 C5 MNB doub 270 n y C4 HC4 MNB sing 271 n n C5 S5 MNB sing 272 n n S5 HS5 MNB sing 273 n n C10 O12 MNB sing 274 n n C10 O11 MNB doub 275 n n O12 H12 MNB sing 276 n n N7 O9 MNB doub 277 n n N7 O8 MNB sing 278 n n # _atom_sites.entry_id 1F42 _atom_sites.fract_transf_matrix[1][1] 0.029412 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018182 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.005285 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 3 MNB A 1 504 177 MNB CYD . D 3 MNB A 1 505 252 MNB CYD . E 4 HOH A 1 506 1 HOH WAT . E 4 HOH A 2 507 2 HOH WAT . E 4 HOH A 3 508 3 HOH WAT . E 4 HOH A 4 509 4 HOH WAT . E 4 HOH A 5 510 5 HOH WAT . E 4 HOH A 6 511 6 HOH WAT . E 4 HOH A 7 512 7 HOH WAT . E 4 HOH A 8 513 8 HOH WAT . E 4 HOH A 9 514 9 HOH WAT . E 4 HOH A 10 515 10 HOH WAT . E 4 HOH A 11 516 11 HOH WAT . E 4 HOH A 12 517 12 HOH WAT . E 4 HOH A 13 518 14 HOH WAT . E 4 HOH A 14 519 15 HOH WAT . E 4 HOH A 15 520 16 HOH WAT . E 4 HOH A 16 521 17 HOH WAT . E 4 HOH A 17 522 18 HOH WAT . E 4 HOH A 18 523 19 HOH WAT . E 4 HOH A 19 524 21 HOH WAT . E 4 HOH A 20 525 22 HOH WAT . E 4 HOH A 21 526 23 HOH WAT . E 4 HOH A 22 527 24 HOH WAT . E 4 HOH A 23 528 25 HOH WAT . E 4 HOH A 24 529 26 HOH WAT . E 4 HOH A 25 530 27 HOH WAT . E 4 HOH A 26 531 28 HOH WAT . E 4 HOH A 27 532 29 HOH WAT . E 4 HOH A 28 533 30 HOH WAT . E 4 HOH A 29 534 31 HOH WAT . E 4 HOH A 30 535 32 HOH WAT . E 4 HOH A 31 536 33 HOH WAT . E 4 HOH A 32 537 34 HOH WAT . E 4 HOH A 33 538 35 HOH WAT . E 4 HOH A 34 539 36 HOH WAT . E 4 HOH A 35 540 37 HOH WAT . E 4 HOH A 36 541 38 HOH WAT . E 4 HOH A 37 542 39 HOH WAT . E 4 HOH A 38 543 40 HOH WAT . E 4 HOH A 39 544 41 HOH WAT . E 4 HOH A 40 545 42 HOH WAT . E 4 HOH A 41 546 43 HOH WAT . E 4 HOH A 42 547 44 HOH WAT . E 4 HOH A 43 548 45 HOH WAT . E 4 HOH A 44 549 46 HOH WAT . E 4 HOH A 45 550 47 HOH WAT . E 4 HOH A 46 551 48 HOH WAT . E 4 HOH A 47 552 49 HOH WAT . E 4 HOH A 48 553 50 HOH WAT . E 4 HOH A 49 554 51 HOH WAT . E 4 HOH A 50 555 52 HOH WAT . E 4 HOH A 51 556 53 HOH WAT . E 4 HOH A 52 557 54 HOH WAT . E 4 HOH A 53 558 55 HOH WAT . E 4 HOH A 54 559 56 HOH WAT . E 4 HOH A 55 560 57 HOH WAT . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C6 MNB . . . D 3 32.787 34.542 -48.382 1 62.78 ? C6 MNB 505 A 1 HETATM 2 C C1 MNB . . . D 3 33.23 34.36 -47.028 1 67.22 ? C1 MNB 505 A 1 HETATM 3 C C2 MNB . . . D 3 32.775 35.25 -46.045 1 64.77 ? C2 MNB 505 A 1 HETATM 4 C C3 MNB . . . D 3 31.927 36.303 -46.385 1 62.08 ? C3 MNB 505 A 1 HETATM 5 C C4 MNB . . . D 3 31.488 36.481 -47.736 1 57.75 ? C4 MNB 505 A 1 HETATM 6 C C5 MNB . . . D 3 31.911 35.596 -48.729 1 57.11 ? C5 MNB 505 A 1 HETATM 7 S S5 MNB . . . D 3 31.236 35.714 -50.449 1 48.47 ? S5 MNB 505 A 1 HETATM 8 C C10 MNB . . . D 3 34.135 33.332 -46.687 1 70.13 ? C10 MNB 505 A 1 HETATM 9 O O12 MNB . . . D 3 35.351 33.616 -46.496 1 70.04 ? O12 MNB 505 A 1 HETATM 10 O O11 MNB . . . D 3 33.739 32.134 -46.557 1 66 ? O11 MNB 505 A 1 HETATM 11 N N7 MNB . . . D 3 33.102 35.014 -44.635 1 67.79 ? N7 MNB 505 A 1 HETATM 12 O O9 MNB . . . D 3 32.402 34.122 -43.862 1 69.2 ? O9 MNB 505 A 1 HETATM 13 O O8 MNB . . . D 3 34.122 35.65 -43.977 1 67.02 ? O8 MNB 505 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 13 #